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Gene

SEPSECS

Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase

Summary

Cytogenetic location
4p15.2
Coordinates
Chromosome 4: 25,120,014–25,160,449 (GRCh38)
Exons
11 exons across 40.4 kb
Protein
501 amino acids
Also known as
SLA/LP, SLA, SLA-p35, SecS
MANE Select transcript
ENST00000382103.7NM_016955.4
Locus type
gene with protein product
  • Very high
  • Confident
  • Low
  • Very low

Reference genomeGRCh38

Positions on gene and variant pages follow this choice, in this browser.

Curated report relevant to this gene

  • Spinal Muscular Atrophy

    • A group of disorders characterised by degeneration of spinal cord anterior horn cells, leading to progressive muscle weakness and atrophy.

      • 5 GenCC submitters rate it definitive or strong
      What knowing changes

      Gene therapy (onasemnogene abeparvovec), antisense oligonucleotide therapy (nusinersen), oral splicing modifier (risdiplam), supportive care

How SEPSECS is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 4, with a bracket where SEPSECS sits. SEPSECS and 6 genes near it on chromosome 4, from 24,640,232 to 25,640,231.Chromosome 44p15.2p16.3p16.2p16.1p15.33p15.32p15.31p15.2p15.1p14p13p12p11q11q12q13.1q13.2q13.3q21.1q21.21q21.22q21.23q21.3q22.1q22.2q22.3q23q24q25q26q27q28.1q28.2q28.3q31.1q31.21q31.22q31.23q31.3q32.1q32.2q32.3q33q34.1q34.2q34.3q35.1q35.224.8 Mb25 Mb25.2 Mb25.4 Mb25.6 MbSOD3: 24,789,912–24,801,561, forward strandSOD3CCDC149: 24,803,514–24,980,204, reverse strandCCDC149LGI2: 24,996,188–25,030,970, reverse strandLGI2SEPSECS: 25,120,014–25,160,449, reverse strandSEPSECSPI4K2B: 25,160,663–25,280,542, forward strandPI4K2BZCCHC4: 25,312,768–25,372,306, forward strandZCCHC4ANAPC4: 25,377,210–25,420,310, forward strandANAPC4Diagram of SEPSECS: 11 exons on the reverse strand of chromosome 4Exon 11: 6 known disease-causing sitesExon 10: 5 known disease-causing sitesExon 9: 1 known disease-causing siteExon 8: 4 known disease-causing sitesExon 7: 9 known disease-causing sitesExon 6: 4 known disease-causing sitesExon 5: 6 known disease-causing sitesExon 4: 10 known disease-causing sitesExon 3: 2 known disease-causing sitesExon 2: 5 known disease-causing sitesExon 1: 8 known disease-causing sitesExon 11: 25,120,014–25,124,225, 4,212 basesExon 10: 25,125,694–25,125,784, 91 basesExon 9: 25,127,264–25,127,357, 94 basesExon 8: 25,144,774–25,144,865, 92 basesExon 7: 25,145,004–25,145,133, 130 basesExon 6: 25,151,960–25,152,062, 103 basesExon 5: 25,154,998–25,155,151, 154 basesExon 4: 25,156,037–25,156,195, 159 basesExon 3: 25,156,856–25,156,974, 119 basesExon 2: 25,158,953–25,159,107, 155 basesExon 1: 25,160,256–25,160,449, 194 bases1110864215′3′

Exons of the gene's MANE Select transcript (release v1.5), from NCBI and EMBL-EBI, on the GRCh38 reference genome.

Chromosome bands from UCSC's GRCh38 ideogram (2022-10-29).

Nearby genes from Ensembl release 116, on GRCh38.

Exons make up 5.5 kb of the gene's 40.4 kb; 1,506 of those bases code for the protein.

How a genome test reads SEPSECS

70

positions in SEPSECS where ClinVar classes a change as pathogenic or likely pathogenic

None of them falls in a region short reads find hard.

A whole genome covers all 40.4 kb of SEPSECS, introns included, not only the 5.5 kb of exons.

Where this comes from

  • HGNC: the gene's symbol, name, other symbols and location.
  • MANE Select v1.5, from NCBI and EMBL-EBI: the transcript, its exons and coding sequence.
  • GenCC and ClinGen, released 2026-10-16: which conditions the gene is linked to, and how strongly.
  • The ACMG secondary findings list, SF v3.2.
  • ClinVar and the GIAB stratifications: known disease-causing sites, and the regions short reads find hard.
  • The Human Phenotype Ontology, release 2026-09-01: the traits linked to the gene. Find out more at hpo.jax.org.
  • Data release 2026.10.16-c6eea6bf.

Cite this page

APA

Dante Labs. (n.d.). SEPSECS gene: Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase. Retrieved 17 October 2026, from https://dantelabs.com/genes/sepsecs

Vancouver

Dante Labs. SEPSECS gene: Sep (O-phosphoserine) tRNA:Sec (selenocysteine) tRNA synthase [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/sepsecs

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